Functions, Transmission and Emission of the Canopy Microbiota Tania Fort
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Characterization of the Aerobic Anoxygenic Phototrophic Bacterium Sphingomonas Sp
microorganisms Article Characterization of the Aerobic Anoxygenic Phototrophic Bacterium Sphingomonas sp. AAP5 Karel Kopejtka 1 , Yonghui Zeng 1,2, David Kaftan 1,3 , Vadim Selyanin 1, Zdenko Gardian 3,4 , Jürgen Tomasch 5,† , Ruben Sommaruga 6 and Michal Koblížek 1,* 1 Centre Algatech, Institute of Microbiology, Czech Academy of Sciences, 379 81 Tˇreboˇn,Czech Republic; [email protected] (K.K.); [email protected] (Y.Z.); [email protected] (D.K.); [email protected] (V.S.) 2 Department of Plant and Environmental Sciences, University of Copenhagen, Thorvaldsensvej 40, 1871 Frederiksberg C, Denmark 3 Faculty of Science, University of South Bohemia, 370 05 Ceskˇ é Budˇejovice,Czech Republic; [email protected] 4 Institute of Parasitology, Biology Centre, Czech Academy of Sciences, 370 05 Ceskˇ é Budˇejovice,Czech Republic 5 Research Group Microbial Communication, Technical University of Braunschweig, 38106 Braunschweig, Germany; [email protected] 6 Laboratory of Aquatic Photobiology and Plankton Ecology, Department of Ecology, University of Innsbruck, 6020 Innsbruck, Austria; [email protected] * Correspondence: [email protected] † Present Address: Department of Molecular Bacteriology, Helmholtz-Centre for Infection Research, 38106 Braunschweig, Germany. Abstract: An aerobic, yellow-pigmented, bacteriochlorophyll a-producing strain, designated AAP5 Citation: Kopejtka, K.; Zeng, Y.; (=DSM 111157=CCUG 74776), was isolated from the alpine lake Gossenköllesee located in the Ty- Kaftan, D.; Selyanin, V.; Gardian, Z.; rolean Alps, Austria. Here, we report its description and polyphasic characterization. Phylogenetic Tomasch, J.; Sommaruga, R.; Koblížek, analysis of the 16S rRNA gene showed that strain AAP5 belongs to the bacterial genus Sphingomonas M. Characterization of the Aerobic and has the highest pairwise 16S rRNA gene sequence similarity with Sphingomonas glacialis (98.3%), Anoxygenic Phototrophic Bacterium Sphingomonas psychrolutea (96.8%), and Sphingomonas melonis (96.5%). -
ISOLATION and IDENTIFICATION of Taphrina Caerulescens in Quercus Eduardii in AGUASCALIENTES, MEXICO
ISOLATION AND IDENTIFICATION OF Taphrina caerulescens IN Quercus eduardii IN AGUASCALIENTES, MEXICO AISLAMIENTO E IDENTIFICACIÓN DE Taphrina caerulescens EN Quercus eduardii EN AGUASCALIENTES, MÉXICO Gregg Evans1, Onesimo Moreno-Rico2*, José J. Luna-Ruíz3, Joaquín Sosa-Ramírez3, Celeste E. Moreno-Manzano4 1Ciencias Biológicas, Centro de Ciencias Básicas (CCB), Universidad Autónoma de Aguascalientes (UAA), Avenida Universidad # 940, Colonia Ciudad Universitaria, C.P. 20131, Aguascalientes, Aguascalientes, México ([email protected]). 2Departamento de Microbiología, CCB, UAA, Avenida Universidad # 940, Ciudad Universitaria C.P. 20131, Aguascalientes, Aguascalientes, México ([email protected]). 3Departamento de Disciplinas Agrícolas, Centro de Ciencias Agropecuarias, UAA, Jesús María, Aguascalientes. ([email protected]), ([email protected]). 4CBTA 61, Aquiles Elorduy Garcia, Calvillo, Aguascalientes, México ([email protected]). ABSTRACT RESUMEN Taphrina caerulescens exclusively affects plants of the Quercus Taphrina caerulescens afecta exclusivamente a las plantas del gé- genus. The identification and isolation of this fungus is difficult nero Quercus. La identificación y el aislamiento de este hongo due to its dimorphic nature and extremely slow growth habit es difícil debido a su naturaleza dimórfica y su hábito de cre- in artificial growth media. The objective of this research was to cimiento extremadamente lento en los medios de crecimiento isolate and identify the fungal pathogen T. caerulescens. Three artificial. El objetivo de esta investigación fue aislar e identificar methods were used to isolate the fungus, however, only the spore el patógeno fúngico T. caerulescens. Tres métodos se usaron para fall method was successful. In order to identify the fungus, a aislar el hongo; sin embargo, solo el método de caída de esporas visual inspection of the host plants infected leaves was carried fue exitoso. -
A Scanning Electron Microscopic Study of the Infection of Water Oak (Quercus Nigra) by Taphrina Caerulescens
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by SFA ScholarWorks Stephen F. Austin State University SFA ScholarWorks Faculty Publications Biology 2000 A Scanning Electron Microscopic Study of the Infection of Water Oak (Quercus nigra) by Taphrina Caerulescens Josephine Taylor Stephen F Austin State University, Department of Biology, [email protected] Dale O. Birdwell Follow this and additional works at: http://scholarworks.sfasu.edu/biology Part of the Biology Commons, and the Plant Sciences Commons Tell us how this article helped you. Recommended Citation Taylor, Josephine and Birdwell, Dale O., "A Scanning Electron Microscopic Study of the Infection of Water Oak (Quercus nigra) by Taphrina Caerulescens" (2000). Faculty Publications. Paper 88. http://scholarworks.sfasu.edu/biology/88 This Article is brought to you for free and open access by the Biology at SFA ScholarWorks. It has been accepted for inclusion in Faculty Publications by an authorized administrator of SFA ScholarWorks. For more information, please contact [email protected]. Mycological Society of America A Scanning Electron Microscopic Study of the Infection of Water Oak (Quercus nigra) by Taphrina caerulescens Author(s): Josephine Taylor and Dale O. Birdwell Source: Mycologia, Vol. 92, No. 2 (Mar. - Apr., 2000), pp. 309-311 Published by: Mycological Society of America Stable URL: http://www.jstor.org/stable/3761566 Accessed: 07-10-2015 16:18 UTC Your use of the JSTOR archive indicates your acceptance of the Terms & Conditions of Use, available at http://www.jstor.org/page/ info/about/policies/terms.jsp JSTOR is a not-for-profit service that helps scholars, researchers, and students discover, use, and build upon a wide range of content in a trusted digital archive. -
Microbial Community of Olives and Its Potential for Biological Control of Olive Anthracnose
Microbial community of olives and its potential for biological control of olive anthracnose Gilda Conceição Raposo Preto Dissertation presented to the Agricultural School for obtaining a Master's degree in Biotechnological Engineering Supervised by Prof. Dr. Paula Cristina dos Santos Baptista Prof. Dr. José Alberto Pereira Bragança 2016 “The little I know I owe to my ignorance” Orville Mars II Acknowledgment First I would like to thank my supervisor, Professor Dr. Paula Baptista., for your willingness, patience, being a tireless person who always helped me in the best way. Thank you for always required the best of me, and thank you for all your advice and words that helped me in less good times. I will always be grateful. I would like to thank my co-supervisor, Professor Dr. José Alberto Pereira, to be always available for any questions, and all the available help. A very special thank you to Cynthia, for being always there to cheer me up, for all the help and all the advice that I will take with me forever. A big thank you to Gisela, Fátima, Teresa, Nuno, Diogo and Ricardo, because they are simply the best people he could have worked for all the advice, tips and words friends you have given me, thank you. I couldn’t fail to thank those who have always been present in the best and worst moments since the beginning, Diogo, Rui, Cláudia, Sara and Rui. You always believed in me and always gave me on the head when needed, thank you. To Vitor, for never given up and have always been present in the worst moments, for your patience, help and dedication, and because you know always how to cheer me up and make smille. -
First Records of a Powdery Mildew Fungus Sawadaea Bicornis (Wallr.)
УДК 582.282.112(477) В.П. ГЕЛЮТА 1, В.В. ДЖАГАН 2, О.О. СЕНЧИЛО 2 1 Інститут ботаніки імені М.Г. Холодного НАН України Україна, 01601 м. Київ, вул. Терещенківська, 2 2 Навчально-науковий центр «Інститут біології», Київський національний університет імені Тараса Шевченка Україна, 01601 м. Київ, вул. Володимирська, 64 ПЕРШІ ЗНАХІДКИ БОРОШНИСТОРОСЯНОГО ГРИБА SAWADAEA BICORNIS (WALLR.) HOMMA НА ACER VELUTINUM BOISS. В УКРАЇНІ Наведено інформацію про перші знахідки в Україні борошнисторосяного гриба Sawadaea bicornis (Wallr.) Homma на інтродукованому декоративному клені (Acer velutinum Boiss.). Уперше гриб виявлено у 2014 р. на території Ботаніч- ного саду імені акад. О.В. Фоміна (Київ). Його розвиток спостерігали тут і наступного року. Ураження A. velutinum борошнистою росою не було значним, міцелій гриба у вигляді дифузних сіруватих плям був добре помітний з верхнього боку листків. Відзначено утворення плодових тіл. Знахідка S. bicornis на A. velutinum є новою не лише для території України, а й для Європи. Очевидно, ця знахідка є свідченням того, що інтродуковані рослини можуть уражатися місцевими расами борошнисторосяних грибів, які розвиваються на споріднених аборигенних видах рослин-жи ви те лів. Ключові слова: Ascomycota, Erysiphales, Sawadaea tulasnei, декоративна рослина, Sapindaceae, Ботанічний сад імені акад. О.В. Фоміна, Крим, Нікітський ботанічний сад. Борошнисторосяні гриби (Erysiphales, Ascomy- на кінському каштані та ще п’яти видах роду cota) є облігатними паразитами судинних рос- Aesculus L. [3], E. elevata (Burrill) U. Braun et лин, переважно дводольних. За останніми да- S. Takam. на катальпі [13], E. magnifica (U. Braun) ними [11], вони уражують понад 10 тис. видів U. Braun et S. Takam. на 11 видах магнолій [9], рослин, однак кожен рік у світі реєструють E. -
Inoculation with Mycorrhizal Fungi and Irrigation Management Shape the Bacterial and Fungal Communities and Networks in Vineyard Soils
microorganisms Article Inoculation with Mycorrhizal Fungi and Irrigation Management Shape the Bacterial and Fungal Communities and Networks in Vineyard Soils Nazareth Torres † , Runze Yu and S. Kaan Kurtural * Department of Viticulture and Enology, University of California Davis, 1 Shields Avenue, Davis, CA 95616, USA; [email protected] (N.T.); [email protected] (R.Y.) * Correspondence: [email protected] † Current address: Advanced Fruit and Grape Growing Group, Public University of Navarra, 31006 Pamplona, Spain. Abstract: Vineyard-living microbiota affect grapevine health and adaptation to changing environ- ments and determine the biological quality of soils that strongly influence wine quality. However, their abundance and interactions may be affected by vineyard management. The present study was conducted to assess whether the vineyard soil microbiome was altered by the use of biostimulants (arbuscular mycorrhizal fungi (AMF) inoculation vs. non-inoculated) and/or irrigation management (fully irrigated vs. half irrigated). Bacterial and fungal communities in vineyard soils were shaped by both time course and soil management (i.e., the use of biostimulants and irrigation). Regarding alpha diversity, fungal communities were more responsive to treatments, whereas changes in beta diversity were mainly recorded in the bacterial communities. Edaphic factors rarely influence bacte- rial and fungal communities. Microbial network analyses suggested that the bacterial associations Citation: Torres, N.; Yu, R.; Kurtural, were weaker than the fungal ones under half irrigation and that the inoculation with AMF led to S.K. Inoculation with Mycorrhizal the increase in positive associations between vineyard-soil-living microbes. Altogether, the results Fungi and Irrigation Management highlight the need for more studies on the effect of management practices, especially the addition Shape the Bacterial and Fungal of AMF on cropping systems, to fully understand the factors that drive their variability, strengthen Communities and Networks in Vineyard Soils. -
Effect of Vertical Flow Exchange on Microbial Community Dis- Tributions in Hyporheic Zones
Article 1 by Heejung Kim and Kang-Kun Lee* Effect of vertical flow exchange on microbial community dis- tributions in hyporheic zones School of Earth and Environmental Sciences, Seoul National University, Seoul 08826, Republic of Korea; *Corresponding author, E-mail: [email protected] (Received: November 2, 2018; Revised accepted: January 6, 2019) https://doi.org/10.18814/epiiugs/2019/019001 The effect of the vertical flow direction of hyporheic flux advance of hydrodynamic modeling has improved research of hydro- on the bacterial community is examined. Vertical velocity logical exchange processes at the hyporheic zone (Cardenas and Wil- change of the hyporheic zone was examined by installing son, 2007; Fleckenstein et al., 2010; Endreny et al., 2011). Also, this a piezometer on the site, and a total of 20,242 reads were zone has plentiful micro-organisms. The hyporheic zone constituents analyzed using a pyrosequencing assay to investigate the a dynamic hotspot (ecotone) where groundwater and surface water diversity of bacterial communities. Proteobacteria (55.1%) mix (Smith et al., 2008). were dominant in the hyporheic zone, and Bacteroidetes This area constitutes a flow path along which surface water down wells into the streambed sediment and groundwater up wells in the (16.5%), Actinobacteria (7.1%) and other bacteria phylum stream, travels for some distance before eventually mixing with (Firmicutes, Cyanobacteria, Chloroflexi, Planctomycetesm groundwater returns to the stream channel (Hassan et al., 2015). Sur- and unclassified phylum OD1) were identified. Also, the face water enters the hyporheic zone when the vertical hydraulic head hyporheic zone was divided into 3 points – down welling of surface water is greater than the groundwater (down welling). -
Alpine Soil Bacterial Community and Environmental Filters Bahar Shahnavaz
Alpine soil bacterial community and environmental filters Bahar Shahnavaz To cite this version: Bahar Shahnavaz. Alpine soil bacterial community and environmental filters. Other [q-bio.OT]. Université Joseph-Fourier - Grenoble I, 2009. English. tel-00515414 HAL Id: tel-00515414 https://tel.archives-ouvertes.fr/tel-00515414 Submitted on 6 Sep 2010 HAL is a multi-disciplinary open access L’archive ouverte pluridisciplinaire HAL, est archive for the deposit and dissemination of sci- destinée au dépôt et à la diffusion de documents entific research documents, whether they are pub- scientifiques de niveau recherche, publiés ou non, lished or not. The documents may come from émanant des établissements d’enseignement et de teaching and research institutions in France or recherche français ou étrangers, des laboratoires abroad, or from public or private research centers. publics ou privés. THÈSE Pour l’obtention du titre de l'Université Joseph-Fourier - Grenoble 1 École Doctorale : Chimie et Sciences du Vivant Spécialité : Biodiversité, Écologie, Environnement Communautés bactériennes de sols alpins et filtres environnementaux Par Bahar SHAHNAVAZ Soutenue devant jury le 25 Septembre 2009 Composition du jury Dr. Thierry HEULIN Rapporteur Dr. Christian JEANTHON Rapporteur Dr. Sylvie NAZARET Examinateur Dr. Jean MARTIN Examinateur Dr. Yves JOUANNEAU Président du jury Dr. Roberto GEREMIA Directeur de thèse Thèse préparée au sien du Laboratoire d’Ecologie Alpine (LECA, UMR UJF- CNRS 5553) THÈSE Pour l’obtention du titre de Docteur de l’Université de Grenoble École Doctorale : Chimie et Sciences du Vivant Spécialité : Biodiversité, Écologie, Environnement Communautés bactériennes de sols alpins et filtres environnementaux Bahar SHAHNAVAZ Directeur : Roberto GEREMIA Soutenue devant jury le 25 Septembre 2009 Composition du jury Dr. -
University of California Santa Cruz Responding to An
UNIVERSITY OF CALIFORNIA SANTA CRUZ RESPONDING TO AN EMERGENT PLANT PEST-PATHOGEN COMPLEX ACROSS SOCIAL-ECOLOGICAL SCALES A dissertation submitted in partial satisfaction of the requirements for the degree of DOCTOR OF PHILOSOPHY in ENVIRONMENTAL STUDIES with an emphasis in ECOLOGY AND EVOLUTIONARY BIOLOGY by Shannon Colleen Lynch December 2020 The Dissertation of Shannon Colleen Lynch is approved: Professor Gregory S. Gilbert, chair Professor Stacy M. Philpott Professor Andrew Szasz Professor Ingrid M. Parker Quentin Williams Acting Vice Provost and Dean of Graduate Studies Copyright © by Shannon Colleen Lynch 2020 TABLE OF CONTENTS List of Tables iv List of Figures vii Abstract x Dedication xiii Acknowledgements xiv Chapter 1 – Introduction 1 References 10 Chapter 2 – Host Evolutionary Relationships Explain 12 Tree Mortality Caused by a Generalist Pest– Pathogen Complex References 38 Chapter 3 – Microbiome Variation Across a 66 Phylogeographic Range of Tree Hosts Affected by an Emergent Pest–Pathogen Complex References 110 Chapter 4 – On Collaborative Governance: Building Consensus on 180 Priorities to Manage Invasive Species Through Collective Action References 243 iii LIST OF TABLES Chapter 2 Table I Insect vectors and corresponding fungal pathogens causing 47 Fusarium dieback on tree hosts in California, Israel, and South Africa. Table II Phylogenetic signal for each host type measured by D statistic. 48 Table SI Native range and infested distribution of tree and shrub FD- 49 ISHB host species. Chapter 3 Table I Study site attributes. 124 Table II Mean and median richness of microbiota in wood samples 128 collected from FD-ISHB host trees. Table III Fungal endophyte-Fusarium in vitro interaction outcomes. -
Tenggerimyces Flavus Sp. Nov., Isolated from Soil in a Karst Cave, and Emended Description of the Genus Tenggerimyces
International Journal of Systematic and Evolutionary Microbiology (2016), 66, 1499–1505 DOI 10.1099/ijsem.0.000908 Tenggerimyces flavus sp. nov., isolated from soil in a karst cave, and emended description of the genus Tenggerimyces Xiao-Jun Li,1,2 Su-Juan Dai,1 Shao-Wei Liu,1 Jia-Meng Liu,1 Li Chen,3 Lin Hu3 and Cheng-Hang Sun1 Correspondence 1Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Cheng-Hang Sun Medical College, Beijing 100050, PR China [email protected] or 2College of laboratory Medical Science, Hebei North University, Zhangjiakou 075000, PR China [email protected] 3Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, PR China A novel actinomycete, designated strain S6R2A4-9T, was isolated from a soil sample collected from a karst cave in Henan Province, China, and subjected to a polyphasic taxonomic study. This isolate grew optimally at 25–28 8C, pH 6.5–8.0 and in the absence of NaCl. The substrate mycelium of the isolate was well developed with irregular branches. Aerial mycelium fragmented into long, rod-shaped elements. Phylogenetic analyses based on 16S rRNA gene sequences showed that strain S6R2A4-9T resided in the cluster of the genus Tenggerimyces within the family Nocardioidaceae and shared the highest 16S rRNA gene sequence similarity (98.98 %) with Tenggerimyces mesophilus I12A-02601T. The G+C content of the genomic DNA was 67.0 mol%. The strain contained glucose, ribose and xylose in its whole-cell hydrolysates. Strain S6R2A4-9T possessed a novel variation of peptidoglycan derived from the type A1c meso-Dpm-direct. -
Preliminary Classification of Leotiomycetes
Mycosphere 10(1): 310–489 (2019) www.mycosphere.org ISSN 2077 7019 Article Doi 10.5943/mycosphere/10/1/7 Preliminary classification of Leotiomycetes Ekanayaka AH1,2, Hyde KD1,2, Gentekaki E2,3, McKenzie EHC4, Zhao Q1,*, Bulgakov TS5, Camporesi E6,7 1Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, Yunnan, China 2Center of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai, 57100, Thailand 3School of Science, Mae Fah Luang University, Chiang Rai, 57100, Thailand 4Landcare Research Manaaki Whenua, Private Bag 92170, Auckland, New Zealand 5Russian Research Institute of Floriculture and Subtropical Crops, 2/28 Yana Fabritsiusa Street, Sochi 354002, Krasnodar region, Russia 6A.M.B. Gruppo Micologico Forlivese “Antonio Cicognani”, Via Roma 18, Forlì, Italy. 7A.M.B. Circolo Micologico “Giovanni Carini”, C.P. 314 Brescia, Italy. Ekanayaka AH, Hyde KD, Gentekaki E, McKenzie EHC, Zhao Q, Bulgakov TS, Camporesi E 2019 – Preliminary classification of Leotiomycetes. Mycosphere 10(1), 310–489, Doi 10.5943/mycosphere/10/1/7 Abstract Leotiomycetes is regarded as the inoperculate class of discomycetes within the phylum Ascomycota. Taxa are mainly characterized by asci with a simple pore blueing in Melzer’s reagent, although some taxa have lost this character. The monophyly of this class has been verified in several recent molecular studies. However, circumscription of the orders, families and generic level delimitation are still unsettled. This paper provides a modified backbone tree for the class Leotiomycetes based on phylogenetic analysis of combined ITS, LSU, SSU, TEF, and RPB2 loci. In the phylogenetic analysis, Leotiomycetes separates into 19 clades, which can be recognized as orders and order-level clades. -
Table S5. the Information of the Bacteria Annotated in the Soil Community at Species Level
Table S5. The information of the bacteria annotated in the soil community at species level No. Phylum Class Order Family Genus Species The number of contigs Abundance(%) 1 Firmicutes Bacilli Bacillales Bacillaceae Bacillus Bacillus cereus 1749 5.145782459 2 Bacteroidetes Cytophagia Cytophagales Hymenobacteraceae Hymenobacter Hymenobacter sedentarius 1538 4.52499338 3 Gemmatimonadetes Gemmatimonadetes Gemmatimonadales Gemmatimonadaceae Gemmatirosa Gemmatirosa kalamazoonesis 1020 3.000970902 4 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas indica 797 2.344876284 5 Firmicutes Bacilli Lactobacillales Streptococcaceae Lactococcus Lactococcus piscium 542 1.594633558 6 Actinobacteria Thermoleophilia Solirubrobacterales Conexibacteraceae Conexibacter Conexibacter woesei 471 1.385742446 7 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas taxi 430 1.265115184 8 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas wittichii 388 1.141545794 9 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas sp. FARSPH 298 0.876754244 10 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sorangium cellulosum 260 0.764953367 11 Proteobacteria Deltaproteobacteria Myxococcales Polyangiaceae Sorangium Sphingomonas sp. Cra20 260 0.764953367 12 Proteobacteria Alphaproteobacteria Sphingomonadales Sphingomonadaceae Sphingomonas Sphingomonas panacis 252 0.741416341